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Ca2+-Calmodulin in complex with human muscle form creatine kinase peptide in extended 1:2 binding mode
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2L7L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 293 25% PEG 1500, 0.1 M SPG buffer pH 4-5.
CaM-CKBpeptide ratios of 1:4
Crystal Properties Matthews coefficient Solvent content 1.77 30.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.695 α = 90 b = 24.53 β = 104.838 c = 60.349 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2018-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.97625 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.43 34.346 97.13 0.05134 0.999 14.6 7 27542 23.52
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.43 1.481 91.07 1.506 0.515 0.96
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2l7l 1.43 34.346 27541 1334 97.459 0.202 0.2006 0.2006 0.2281 0.2283 35.196
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 1.079 -0.155 0.142 -0.999
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.679 r_dihedral_angle_3_deg 17.569 r_dihedral_angle_4_deg 17.529 r_lrange_it 7.795 r_lrange_other 7.785 r_scangle_it 6.673 r_scangle_other 6.673 r_dihedral_angle_1_deg 5.174 r_scbond_other 4.422 r_scbond_it 4.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.679 r_dihedral_angle_3_deg 17.569 r_dihedral_angle_4_deg 17.529 r_lrange_it 7.795 r_lrange_other 7.785 r_scangle_it 6.673 r_scangle_other 6.673 r_dihedral_angle_1_deg 5.174 r_scbond_other 4.422 r_scbond_it 4.42 r_mcangle_other 3.781 r_mcangle_it 3.779 r_mcbond_it 2.756 r_mcbond_other 2.753 r_angle_refined_deg 1.762 r_angle_other_deg 0.702 r_nbd_other 0.28 r_nbd_refined 0.253 r_symmetry_nbd_refined 0.239 r_symmetry_nbd_other 0.211 r_xyhbond_nbd_refined 0.208 r_nbtor_refined 0.179 r_symmetry_xyhbond_nbd_refined 0.149 r_metal_ion_refined 0.108 r_symmetry_metal_ion_refined 0.096 r_symmetry_nbtor_other 0.095 r_chiral_restr 0.09 r_symmetry_xyhbond_nbd_other 0.05 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 r_bond_other_d 0.007 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1380 Nucleic Acid Atoms Solvent Atoms 87 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing